Lost Connection to Wiimote

So every now and then while playing the wii, specifically Super Mario Bros 3 from the Wii Shop I bought before softmodding, I lose connection to my controllers. It's really frustrating. It all started after I had tried to get MH3 working and had many failed attempts. Is anyone else having this issue or know of a fix that I can do to make it so I don't lose connection to games?